coRdon
This is thereleased version of coRdon; for the devel version, seecoRdon.
Codon Usage Analysis and Prediction of Gene Expressivity
Bioconductor version: Release (3.22)
Tool for analysis of codon usage in various unannotated or KEGG/COG annotated DNA sequences. Calculates different measures of CU bias and CU-based predictors of gene expressivity, and performs gene set enrichment analysis for annotated sequences. Implements several methods for visualization of CU and enrichment analysis results.
Author: Anamaria Elek [cre, aut], Maja Kuzman [aut], Kristian Vlahovicek [aut]
Maintainer: Anamaria Elek <anamariaelek at gmail.com>
citation("coRdon")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("coRdon")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("coRdon")| coRdon | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | BiomedicalInformatics,GeneExpression,GenePrediction,GeneSetEnrichment,Genetics CellBiology,ImmunoOncology,KEGG,Metagenomics,Pathways,Software,Visualization |
| Version | 1.28.0 |
| In Bioconductor since | BioC 3.8 (R-3.5) (7 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.5) |
| Imports | methods, stats, utils,Biostrings,Biobase,dplyr,stringr,purrr,ggplot2,data.table |
| System Requirements | |
| URL | https://github.com/BioinfoHR/coRdon |
| Bug Reports | https://github.com/BioinfoHR/coRdon/issues |
See More
| Suggests | BiocStyle,testthat,knitr,rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | vhcub |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | coRdon_1.28.0.tar.gz |
| Windows Binary (x86_64) | coRdon_1.28.0.zip |
| macOS Binary (x86_64) | coRdon_1.28.0.tgz |
| macOS Binary (arm64) | coRdon_1.28.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/coRdon |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/coRdon |
| Bioc Package Browser | https://code.bioconductor.org/browse/coRdon/ |
| Package Short Url | https://bioconductor.org/packages/coRdon/ |
| Package Downloads Report | Download Stats |